Background In recent years, massively parallel complementary DNA sequencing (RNA
sequencing [RNA-Seq]) has emerged as a fast, cost-effective, and robust technology to …

Transcriptomes are dynamic, with cells, tissues, and body parts expressing particular sets of
transcripts. Transposable elements (TEs) are a known source of transcriptome diversity; …

Transposable elements (TEs) produce structural variants and are considered an important
source of genetic diversity. Notably, TE-gene fusion transcripts, ie chimeric transcripts, have …

Accurate full-length sequencing of a purified unknown protein is still challenging nowadays
due to the error-prone mass-spectrometry (MS)-based methods. De novo identified peptide …

Paracentrotus lividus is the most abundant, geographically distributed, and desirable
echinoid species in Europe. Although economically important, this species has scarce …

Caudata is an order of amphibians with great variation in genome size, which can reach
enormous dimensions in salamanders. In this work, we analysed the activity of transposable …

Transcriptome quality control is an important step in RNA‐Seq experiments. However, the
quality of de novo assembled transcriptomes is difficult to assess, due to the lack of …

In most holometabolous insects, sex differentiation occurs via a hierarchical cascade of
transcription factors, with doublesex (dsx) regulating genes that control sex-specific traits …

Motivation Long-read sequencing technologies are invaluable for determining complex RNA
transcript architectures but are error-prone. Numerous 'hybrid correction'algorithms have …

We propose a new compressed representation for weighted de Bruijn graphs, which is
based on the idea of delta-encoding the variations of k-mer abundances on a spanning …